chrn's library 394 articles Export

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	Prediction of protein folding rates from the amino acid sequence-predicted secondary structure. [My Copy] Proc Natl Acad Sci U S A, Vol. 101, No. 24. (15 June 2004), pp. 8942-8944. by D. N. Ivankov, A. V. Finkelstein posted to finkelstein protein_folding sequence_structure by chrn on 2005-06-17 21:49:00 as along with 1 person aalibes
	Predicting transcription factor specificity with all-atom models. [My Copy] Nucleic acids research (1 October 2008) by Sahand Jamal J. Rahi, Peter Virnau, Leonid A A. Mirny, Mehran Kardar posted to all-atom factor model th_ibg transcription by chrn on 2009-03-01 16:55:05 as along with 6 people Jporci reyez maximilianh lptolik zwang aalibes
	Base pair opening and bubble transport in a DNA double helix induced by a protein molecule in a viscous medium [My Copy] (24 Dec 2008) by V. Vasumathi, M. Daniel posted to th_ibg by chrn on 2009-01-13 01:02:50 as
	Fundamentally different strategies for transcriptional regulation are revealed by information-theoretical analysis of binding motifs [My Copy] (21 Jan 2009) by Leonid A. Mirny, Zeba Wunderlich posted to th_ibg by chrn on 2009-01-13 00:58:09 as along with 3 people emptyhb akraemer jjray
	From nucleoporins to nuclear pore complexes. [My Copy] Current opinion in cell biology, Vol. 9, No. 3. (June 1997), pp. 401-411. by V. Doye, E. Hurt posted to nuclear pore th_ibg by chrn on 2009-01-10 20:02:04 as
	Nuclear pore complex is able to transport macromolecules with diameters of about 39 nm. [My Copy] Molecular biology of the cell, Vol. 13, No. 2. (February 2002), pp. 425-434. by N. Panté, M. Kann posted to th_ibg by chrn on 2009-01-10 15:06:04 as
	Genome comparisons and analysis [My Copy] Current Opinion in Structural Biology, Vol. 13, No. 3. (June 2003), pp. 344-352. by S. Karlin posted to dna-protein th_ibg by chrn on 2008-12-21 21:09:30 as
	Motif Discovery through Predictive Modeling of Gene Regulation [My Copy] (15 Jan 2007) by Manuel Middendorf, Anshul Kundaje, Mihir Shah, Yoav Freund, Chris H. Wiggins, Christina Leslie posted to th_ibg by chrn on 2008-12-20 21:44:30 as
	Spatial effects on the speed and reliability of protein-DNA search [My Copy] (11 Jun 2008) by Zeba Wunderlich, Leonid A. Mirny posted to dna-protein th_ibg by chrn on 2008-12-20 21:42:44 as
	Thermodynamic restrictions on evolutionary optimization of transcription factor proteins [My Copy] (10 Sep 2007) by Longhua Hu, Alexander Y. Grosberg, Robijn Bruinsma posted to evolution th_ibg transcription by chrn on 2008-12-20 21:40:47 as
	Protein and DNA sequence determinants of thermophilic adaptation [My Copy] (23 Nov 2006) by Konstantin B. Zeldovich, Igor N. Berezovsky, Eugene I. Shakhnovich posted to adaptation dna thermophilic by chrn on 2008-12-20 21:23:31 as
	Structure and Dynamics of DNA-dendrimer complexation: Role of counterions, water and base pair sequence [My Copy] (18 Nov 2006) by Prabal K. Maiti, Biman Bagchi posted to complex dna-dendrimer th_ibg by chrn on 2008-12-20 21:21:48 as
	Predicting Transcription Factor Specificity with All-Atom Models [My Copy] (24 Sep 2008) by Sahand J. Rahi, Peter Virnau, Leonid A. Mirny, Mehran Kardar posted to all-atom factor th_ibg transcription by chrn on 2008-12-20 21:18:49 as
	Wide-Scale Analysis of Human Functional Transcription Factor Binding Reveals a Strong Bias towards the Transcription Start Site [My Copy] (8 Nov 2008) by Yuval Tabach, Ran Brosh, Yossi Buganim, et al.Anat Reiner, Or Zuk, Assif Yitzhaky, Mark Koudritsky, Varda Rotter, Eytan Domany posted to factor th_ibg transcription by chrn on 2008-12-20 21:17:52 as
	Importance Sampling of Word Patterns in DNA and Protein Sequences [My Copy] (26 Nov 2008) by Hock P. Chan, Nancy R. Zhang, Louis H. Y. Chen posted to th_ibg by chrn on 2008-12-20 21:11:45 as
	Simulation and analysis of in vitro DNA evolution [My Copy] (21 Jan 2003) by Morten Kloster, Chao Tang posted to dna evolution th_ibg by chrn on 2008-12-20 21:09:14 as
	In vivo evidence of alternative loop geometries in DNA-protein complexes [My Copy] (10 Feb 2006) by Leonor Saiz, Jose M. G. Vilar posted to dna-protein energy free th_ibg by chrn on 2008-12-20 21:07:30 as
	Identification of DNA-binding protein target sequences by physical effective energy functions. Free energy analysis of lambda repressor-DNA complexes [My Copy] (14 Dec 2007) by E. Moroni, M. Caselle, F. Fogolari posted to dna-protein energy free th_ibg by chrn on 2008-12-20 21:05:05 as
	DNA nano-mechanics: how proteins deform the double helix [My Copy] (17 Dec 2008) by Nils B. Becker, Ralf Everaers posted to dna-protein elasticity th_ibg by chrn on 2008-12-20 21:04:16 as
	Description of non-specific DNA-protein interaction and facilitated diffusion with a dynamical model [My Copy] (19 Nov 2008) by Ana-Maria Florescu, Marc Joyeux posted to dna-protein non-specific th_ibg by chrn on 2008-12-20 21:02:44 as
	Reconsidering the significance of genomic word frequency [My Copy] (14 Sep 2006) by Miklós Csűrös, Laurent Noé, Gregory Kucherov posted to dna frequency genome word by chrn on 2008-12-20 21:01:58 as
	Aging and Immortality in a Cell Proliferation Model [My Copy] (23 Apr 2008) by T. Antal, K. B. Blagoev, S. A. Trugman, S. Redner posted to aging cell proliferation by chrn on 2008-12-20 20:40:07 as
	Bayesian Clustering of Transcription Factor Binding Motifs [My Copy] (22 Oct 2006) by Shane T. Jensen, Jun S. Liu posted to bayesian clustering factor transcription by chrn on 2008-12-20 20:36:28 as
	Quantum Effects and Genetics Code: Dynamics and Information Transfer in DNA Replication [My Copy] (3 Nov 2006) by S. Mayburov, C. Nicolini, V. Sivozhelezov posted to dna proton th_ibg tocheck tunneling by chrn on 2008-12-20 20:31:42 as
	Energetics of Protein-DNA Interactions [My Copy] (30 Nov 2006) by Jason E. Donald, William W. Chen, Eugene I. Shakhnovich posted to dna-protein th_ibg by chrn on 2008-12-20 20:15:19 as
	Linguistic mechanism of the evolution of amino acid frequencies and genomic GC content [My Copy] (6 Dec 2006) by Dirson J. Li posted to dna linguistic by chrn on 2008-12-20 20:14:39 as along with 1 person nagendranow
	Noise-filtering features of transcription regulation in the yeast S. cerevisiae [My Copy] (29 Mar 2007) by Erik Aurell, Aymeric F. D'herouel, Claes Malmnas, Massimo Vergassola posted to th_ibg transcription by chrn on 2008-12-20 20:12:00 as
	Multiscale modeling of biopolymer translocation through a nanopore [My Copy] (7 Mar 2007) by Maria Fyta, Simone Melchionna, Efthimios Kaxiras, Sauro Succi posted to nanonpore th_ibg translocation by chrn on 2008-12-20 20:10:55 as
	DNA unzipping phase diagram calculated via replica theory [My Copy] (22 Mar 2007) by Brian C. Roland, Kristi A. Hatch, Mara Prentiss, Eugene I. Shakhnovich posted to dna toread unzipping by chrn on 2008-12-20 20:09:20 as
	Electronic parameters for the hole transfer in DNA duplex oligomers [My Copy] (28 Mar 2007) by Julia A. Berashevich, Tapash Chakraborty posted to dna electronic hole toread transfer by chrn on 2008-12-20 20:08:30 as
	Transition on the entropic elasticity of DNA induced by intercalating molecules [My Copy] (18 Apr 2007) by M. S. Rocha, M. C. Ferreira, O. N. Mesquita posted to dna elasticity by chrn on 2008-12-20 20:07:20 as
	Multilevel Deconstruction of the In Vivo Behavior of Looped DNA-Protein Complexes [My Copy] (18 Apr 2007) by Leonor Saiz, Jose M. G. Vilar posted to dna-protein th_ibg toread by chrn on 2008-12-20 20:02:11 as
	Modeling transcription factor binding events to DNA using a random walker/jumper representation on a 1D/2D lattice with different affinity sites [My Copy] (9 Aug 2007) by Vahid Rezania, Jack Tuszynski, Michael Hendzel posted to dna-protein th_ibg toread by chrn on 2008-12-20 19:50:38 as along with 1 person cottrell
	Sleep-Related Hippocampo-Cortical Interplay during Emotional Memory Recollection [My Copy] PLoS Biology, Vol. 5, No. 11. (1 November 2007), e282. by Virginie Sterpenich, Geneviève Albouy, Mélanie Boly, et al.Gilles Vandewalle, Annabelle Darsaud, Evelyne Balteau, Thien T. Dang-Vu, Martin Desseilles, Arnaud D'Argembeau, Steffen Gais, Géraldine Rauchs, Manuel Schabus, Christian Degueldre, André Luxen, Fabienne Collette, Pierre Maquet posted to neurophysiology sleep useful by chrn on 2008-10-05 00:56:00 as along with 2 people sen_cheng apeyrache
	Prediction of DNA-binding residues from sequence [My Copy] Bioinformatics, Vol. 23, No. 13. (1 July 2007), pp. i347-353. by Yanay Ofran, Venkatesh Mysore, Burkhard Rost posted to dna-binding dna-protein prediction sequence-specific th_ibg by chrn on 2008-08-25 16:31:41 as along with 3 people aalibes kaarsinogen GustavoLacerda
	TFmodeller: comparative modelling of protein-DNA complexes. [My Copy] Bioinformatics (25 April 2007) by Bruno Contreras-Moreira, Pierre-Alain A. Branger, Julio Collado-Vides posted to factor protein-dna transcription by chrn on 2008-08-25 16:30:05 as along with 1 person aswin
	Target search of N sliding proteins on a DNA. [My Copy] Biophysical journal, Vol. 89, No. 2. (August 2005), pp. 895-902. by I. M. Sokolov, R. Metzler, K. Pant, M. C. Williams posted to dna-binding dna-protein by chrn on 2008-08-25 16:00:39 as
	A structural taxonomy of DNA-binding domains. [My Copy] Nature, Vol. 353, No. 6346. (24 October 1991), pp. 715-719. by S. C. Harrison posted to dna-binding dna-protein review th_ibg by chrn on 2008-07-06 13:12:14 as
	Structural Basis of Core Promoter Recognition in a Primitive Eukaryote [My Copy] Cell (November 2003), pp. 413-424. by M. A. Schumacher, A. O. T. Lau, P. J. Johnson posted to dna-binding dna-protein th_ibg by chrn on 2008-07-06 13:09:29 as
	Recognition of Nucleic Acid Bases and Base-pairs by Hydrogen Bonding to Amino Acid Side-chains [My Copy] Journal of Molecular Biology, Vol. 327, No. 4. (4 April 2003), pp. 781-796. by Alan C. Cheng, William W. Chen, Cynthia N. Fuhrmann, Alan D. Frankel posted to dna-binding dna-protein th_ibg by chrn on 2008-07-06 13:07:30 as
	Using structural motif templates to identify proteins with DNA binding function. [My Copy] Nucleic Acids Res, Vol. 31, No. 11. (1 June 2003), pp. 2811-2823. by S. Jones, J. A. Barker, I. Nobeli, J. M. Thornton posted to dna-binding dna-protein th_ibg by chrn on 2008-07-06 12:21:06 as along with 1 person medic0747
	Detecting DNA-binding helix-turn-helix structural motifs using sequence and structure information [My Copy] Nucleic Acids Research, Vol. 33, No. 7. (2005), pp. 2129-2140. by Marialuisa Pellegrini-Calace, Janet M. Thornton posted to dna-binding dna-protein helix-turn-helix hmm th_ibg by chrn on 2008-07-06 11:56:30 as
	Determining the informational, navigational, and transactional intent of Web queries [My Copy] Inf. Process. Manage., Vol. 44, No. 3. (May 2008), pp. 1251-1266. by Bernard J. Jansen, Danielle L. Booth, Amanda Spink posted to classification queries query search web by chrn on 2008-07-01 21:04:54 as along with 8 people cyrille echi kumppis sindaino haewoon fmccown sboisen ChaTo
	Corrigendum to \ldquoThe Chandrasekhar\rsquos condition of the equilibrium and stability for a star in the nonextensive kinetic theory\rdquo [New Astronomy 12 (2006) 60\ndash63] [My Copy] New Astronomy, Vol. 12 (November 2007), pp. 657-657. by D. Jiulin posted to no-tag by chrn on 2007-09-09 17:45:47 as
	Change in direction of flagellar rotation is the basis of the chemotactic response in Escherichia coli. [My Copy] Nature, Vol. 249, No. 452. (3 May 1974), pp. 74-77. by S. H. Larsen, R. W. Reader, E. N. Kort, W. W. Tso, J. Adler posted to chemotaxis coli escherichia flagellar refs_ox by chrn on 2007-05-20 10:13:36 as
	Autocorrelation function and power spectrum of two-state random processes used in neurite guidance. [My Copy] Biophys J, Vol. 75, No. 3. (September 1998), pp. 1189-1196. by D. J. Odde, H. M. Buettner posted to autocorrelation ch5 power process random refs_ox spectrum two-state by chrn on 2007-05-15 23:37:44 as
	Conformational spread in a ring of proteins: a stochastic approach to allostery. [My Copy] J Mol Biol, Vol. 308, No. 3. (4 May 2001), pp. 541-553. by T. A. Duke, N. Le Novère, D. Bray posted to nucleation receptors refs_ox by chrn on 2007-05-15 23:11:49 as along with 1 person lenov
	Langevin equation, Fokker-Planck equation and cell migration [My Copy] Bulletin of Mathematical Biology, Vol. 55, No. 3. (May 1993), pp. 585-608. by M. Schienbein, H. Gruler posted to fokker-planck langevin refs_ox by chrn on 2007-05-07 17:50:15 as
	$My PDF tyson_00_fractional.pdf$ Fractional step methods applied to a chemotaxis model [My Copy] Journal of Mathematical Biology, Vol. V41, No. 5. (1 November 2000), pp. 455-475. by Rebecca Tyson, L. G. Stern, Randall J. Leveque posted to chemotaxis fractaion method refs_ox step by chrn on 2007-05-07 17:24:41 as along with 1 person jstajic
	Communication, regulation and control during complex patterning of bacterial colonies [My Copy] Fractals, Vol. 2 (1994), pp. 15-44. by E. Ben-Jacob, O. Shochet, A. Tenenbaum, N. Cohe, A. Czirók, T. Vicsek posted to bacteria colony communication pattern refs_ox by chrn on 2007-05-07 17:17:41 as

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refs_ox	236
chemotaxis	65
ch3	57
refs_snps	36
th_ibg	30
bacteria	24
ch2	23
bacterial	22
catalytic_sites	21
flagellar	20
motor	20
dna-protein	18
refs_catalytic	18
pattern	16
rhodobacter	16
sphaeroides	15
ch1	13
software	13
colony	12
taxis	12
dna-binding	11
snps	11
membrane	9
transcription	9
dna	8
levy_walk	8
protein	8
svm	8
biofilms	7
cell	7
evolution	7
pathway	7
simulation	7
site-specific_evolutionary_models	7
formation	6
hormones	6
prediction	6
receptor	6
refs_mp	6
adaptation	5
cellular	5
cluster	5
factor	5
machine-learning	5
pattern_formation	5
phototaxis	5
protein-dna	5
receptors	5
brain	4
chemoreceptor	4
classifier	4
databases	4
functional_sites	4
individual-based	4
protein_structure	4
random_walk	4
signal	4
signalling	4
toread	4
automata	3
bayesian	3
chemoreceptors	3
classification	3
cognition	3
cooperative	3
flagella	3
galvanotaxis	3
genome	3
lcsh	3
localisation	3
method	3
model	3
network	3
phylogenetic	3
random	3
reaction-diffusion	3
review	3
rhodobacter_sphaeroides	3
software_snps	3
transduction	3
virtual	3
3d	2
all-atom	2
binding	2
biochemical	2
biology	2
cellular_automata	2
chey	2
clustering	2
clusters	2
coli	2
communication	2
complex	2
cytoplasmic	2
data	2
database	2
docking	2
dynamics	2
e-cell	2
elasticity	2
energy	2
escherichia	2
estrogen	2
factors	2
flagellar_motor	2
fokker-planck	2
free	2
helix-turn-helix	2
hmm	2
hpv	2
hydrodynamics	2
ibm	2
in	2
kernels	2
langevin	2
language	2
magnetotaxis	2
memory	2
muscle	2
mutation	2
neural	2
neurophysiology	2
nucleation	2
pdb	2
processes	2
sensitivity	2
sequence-specific	2
snps_refs	2
structure	2
system_biology	2
testosteron	2
thermotaxis	2
transmembrane	2
walk	2
acid	1
agar	1
agents	1
aging	1
airtaxis	1
amino	1
antidote	1
autocorrelation	1
biased	1
biological_motion	1
brownian	1
ca	1
cancer	1
catalytic	1
cath	1
cell-chemotaxis	1
ch10	1
ch4	1
ch5	1
channel	1
charcoal	1
chemical	1
chemokinesis	1
chermoreceptor	1
chimp	1
compucell	1
consurf	1
csa	1
dbsolve	1
dependent	1
detection	1
diel	1
diffusion	1
dipeptides	1
dna-dendrimer	1
electronic	1
emotions	1
endocrine	1
entropy	1
episodic	1
estradiol	1
evaluation	1
evolutionary	1
excitation	1
expectation_maximisation	1
extraction	1
finkelstein	1
flagella_motor	1
flim	1
fluid	1
fokker-plank	1
fractaion	1
fractal	1
frequency	1
g	1
genomics	1
genotype	1
geobacter	1
gmres	1
g-protein_coupled_receptors	1
gradient	1
gravitaxis	1
growth	1
hole	1
homology	1
homstrad	1
hypothalamic	1
immune	1
incongruence	1
index	1
information	1
intelligence	1
interactions	1
interaction_sites	1
intracellular	1
japanese	1
joy	1
jump	1
kanji	1
kinesis	1
kinetics	1
least_squares	1
linguistic	1
locomotion	1
mathbio_textbook	1
maths	1
max_likelihood	1
meliloti	1
metabolism	1
migration	1
milk	1
mining	1
modelling	1
morphogenesis	1
morphotype	1
motif	1
mrbayes	1
multispecies	1
nanonpore	1
networks	1
neural_nets	1
neurolinguistics	1
non-specific	1
nootropic	1
nuclear	1
omim	1
organisation	1
osmotaxis	1
paml	1
papillomavirus	1
pathways	1
ph	1
pharmacokinetic	1
phosphorylation	1
phototaxs	1
phyml	1
poetry	1
polymorphisms	1
population	1
pore	1
power	1
power-law	1
process	1
processing	1
profile-based	1
proliferation	1
prostate	1
protein_folding	1
protein_function	1
proteins	1
protein_struction	1
proton	1
pupko	1
queries	1
query	1
radiation	1
ramp-support	1
reactions	1
recombination	1
refs_peptides	1
regulation	1
reproduction	1
residues	1
response	1
ritual	1
roc	1
rosetta	1
route-learning	1
scop	1
search	1
seasonal	1
self-engineering	1
self-ortanisation	1
self-wiring	1
sequence_structure	1
shannon	1
sift	1
silico	1
sinorhizobium	1
sites	1
site-specific	1
sleep	1
social	1
space	1
spatial	1
spatio	1
spectrum	1
speed	1
sperm	1
state	1
steady	1
step	1
stochastic	1
string	1
swiss-prot	1
system	1
systems	1
tanycytes	1
tar	1
temporal	1
terminated	1
thermophilic	1
tocheck	1
torque	1
tower	1
tracking	1
transfer	1
translocation	1
transport	1
transportdb	1
tumour	1
tunneling	1
two-state	1
ultraviolet	1
unzipping	1
useful	1
velocity	1
viji	1
vm	1
wag	1
web	1
weibull	1
word	1
zipf	1

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